1. 15 Jun, 2015 2 commits
  2. 12 Jun, 2015 1 commit
  3. 05 Jun, 2015 1 commit
    • Mikaël Salson's avatar
      Makefile: make -> $(MAKE) · fef236dd
      Mikaël Salson authored
      We should not launch a command directly but use variables instead.
      The standard variable for make is $(MAKE). It is therefore more portable
      (for instance on freebsd where the make command used should be gmake)
      fef236dd
  4. 22 May, 2015 1 commit
  5. 21 May, 2015 1 commit
  6. 15 May, 2015 1 commit
    • Mathieu Giraud's avatar
      tests/Makefile: runs should-vdj-tests also on revcomp'd files · f0bd00d5
      Mathieu Giraud authored
      All KmerSegmenter should-vdj tests (-2q) are now also run on revcomp'd files (-r), and
      should give exactly the same output than the original test files.
      
      Even if it works, we choose to not run FineSegmenter tests with the same option.
      It would test nothing more, as the '-c segment' command first calls the KmerSegmenter to select
      the best locus with its strand.
      f0bd00d5
  7. 07 Apr, 2015 1 commit
  8. 03 Apr, 2015 3 commits
  9. 16 Mar, 2015 2 commits
  10. 12 Mar, 2015 4 commits
  11. 11 Mar, 2015 4 commits
  12. 01 Mar, 2015 2 commits
  13. 07 Feb, 2015 1 commit
  14. 07 Nov, 2014 1 commit
  15. 22 Oct, 2014 1 commit
  16. 07 Oct, 2014 1 commit
  17. 15 Apr, 2014 1 commit
  18. 25 Mar, 2014 1 commit
    • Mikaël Salson's avatar
      Makefile: Improve management of dependencies · 082b6b4f
      Mikaël Salson authored
      The library is now built in core, where we have the list of dependencies
      (dep.mk). Before dep.mk was in algo/ but the files it was refering to were in
      core/. Thus the dep.mk file was useless.
      082b6b4f
  19. 20 Feb, 2014 1 commit
    • Mathieu Giraud's avatar
      Vidjil: release 2014.02 · 113ee8ee
      Mathieu Giraud authored
      	* Refactored main vidjil.cpp (core/windows.cpp, core/windowExtractor.cpp)
      	* Removed unused html output
      	* Better json output (core/json.cpp)
      	* Updated main stdout, with representative sequence for each clone
      	* Updated parameters for FineSegmenter (delta_max) and dynprog (substition cost)
      	* Bugs closed
      113ee8ee
  20. 07 Oct, 2013 1 commit
    • Mikaël Salson's avatar
      Vidjil: release 2013.10 · 2cbd3725
      Mikaël Salson authored
      	* Better heuristic, segments more reads (core/segment.cpp)
      	* Better and faster selection of representative read (vidjil.cpp, core/read_chooser.cpp)
      	* Better display of reason of non-segmenting reads
      	* New normalization against a standard (-Z) (core/labels.cpp)
      	* New experimental lazy_msa multiple aligner
      	* New .json output
      	* New unit tests
      	* Bugs closed
      2cbd3725
  21. 26 Apr, 2013 1 commit